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- EMDB-60098: pre-frameshift complex of yeast 80S ribosome with eRF1 and mRNA of WNV -
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Open data
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Basic information
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Title | pre-frameshift complex of yeast 80S ribosome with eRF1 and mRNA of WNV | |||||||||
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![]() | 80S ribosome / RIBOSOME | |||||||||
Function / homology | ![]() RNA 5'-cap (guanine-N7)-methylation / RNA stabilization / translation termination factor activity / DNA/DNA annealing activity / RNA folding chaperone / translation release factor complex / cytoplasmic translational termination / RNA strand annealing activity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity / regulation of translational termination ...RNA 5'-cap (guanine-N7)-methylation / RNA stabilization / translation termination factor activity / DNA/DNA annealing activity / RNA folding chaperone / translation release factor complex / cytoplasmic translational termination / RNA strand annealing activity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of JAK1 activity / regulation of translational termination / symbiont-mediated suppression of host apoptosis / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) / translation release factor activity, codon specific / protein methylation / translation release factor activity / Negative regulators of DDX58/IFIH1 signaling / regulation of amino acid metabolic process / negative regulation of glucose mediated signaling pathway / positive regulation of translational fidelity / RMTs methylate histone arginines / sequence-specific mRNA binding / Protein methylation / mTORC1-mediated signalling / Protein hydroxylation / peptidyl-tRNA hydrolase activity / nuclear-transcribed mRNA catabolic process, nonsense-mediated decay / ribosome-associated ubiquitin-dependent protein catabolic process / GDP-dissociation inhibitor activity / positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / pre-mRNA 5'-splice site binding / Formation of the ternary complex, and subsequently, the 43S complex / Translation initiation complex formation / Ribosomal scanning and start codon recognition / preribosome, small subunit precursor / nonfunctional rRNA decay / response to cycloheximide / cleavage in ITS2 between 5.8S rRNA and LSU-rRNA of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / Major pathway of rRNA processing in the nucleolus and cytosol / mRNA destabilization / SRP-dependent cotranslational protein targeting to membrane / GTP hydrolysis and joining of the 60S ribosomal subunit / negative regulation of translational frameshifting / Protein hydroxylation / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / negative regulation of mRNA splicing, via spliceosome / Formation of a pool of free 40S subunits / preribosome, large subunit precursor / flavivirin / L13a-mediated translational silencing of Ceruloplasmin expression / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / Eukaryotic Translation Termination / translational elongation / ribosomal large subunit export from nucleus / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of host TYK2 activity / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / G-protein alpha-subunit binding / 90S preribosome / positive regulation of protein kinase activity / Ub-specific processing proteases / positive regulation of viral genome replication / ribosomal subunit export from nucleus / regulation of translational fidelity / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT2 activity / protein-RNA complex assembly / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / translational termination / maturation of LSU-rRNA / ribosomal small subunit export from nucleus / translation regulator activity / cytosolic ribosome / DNA-(apurinic or apyrimidinic site) endonuclease activity / rescue of stalled ribosome / symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT1 activity / cellular response to amino acid starvation / ribosome assembly / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal large subunit biogenesis / protein kinase C binding / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / translational initiation / small-subunit processome / macroautophagy / protein-DNA complex / maintenance of translational fidelity / modification-dependent protein catabolic process / Regulation of expression of SLITs and ROBOs / protein tag activity / cytoplasmic stress granule / rRNA processing / viral capsid / ribosome biogenesis / peptidase activity / double-stranded RNA binding / ribosome binding / nucleoside-triphosphate phosphatase / ribosomal small subunit biogenesis / ribosomal small subunit assembly Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() ![]() ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.3 Å | |||||||||
![]() | Wu M / Yuan S | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Flexibilities and conservations in the structural basis of viral -1 programmed ribosomal frameshifting Authors: Wu M / Wan X / Zhou H / Yuan S | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 778.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 100.1 KB 100.1 KB | Display Display | ![]() |
Images | ![]() | 67.4 KB | ||
Filedesc metadata | ![]() | 18.6 KB | ||
Others | ![]() ![]() | 764.5 MB 764.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8zhcMC ![]() 8zgrC ![]() 8zgyC ![]() 8zh3C ![]() 8zhbC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.95 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_60098_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_60098_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
+Entire : 80S ribosome
+Supramolecule #1: 80S ribosome
+Macromolecule #1: 25S rRNA (3393-MER)
+Macromolecule #2: 5S rRNA (121-MER)
+Macromolecule #3: 5.8S rRNA (158-MER)
+Macromolecule #45: chain 2 18S rRNA (1799-MER)
+Macromolecule #79: tRNA (77-MER)
+Macromolecule #81: RNA (5'-R(P*GP*AP*CP*CP*CP*UP*UP*AP*AP*C)-3')
+Macromolecule #4: Large ribosomal subunit protein uL2A
+Macromolecule #5: Large ribosomal subunit protein uL3
+Macromolecule #6: Large ribosomal subunit protein uL4A
+Macromolecule #7: Large ribosomal subunit protein uL18
+Macromolecule #8: Large ribosomal subunit protein eL6B
+Macromolecule #9: Large ribosomal subunit protein uL30A
+Macromolecule #10: Large ribosomal subunit protein eL8A
+Macromolecule #11: Large ribosomal subunit protein uL6A
+Macromolecule #12: Large ribosomal subunit protein uL16
+Macromolecule #13: Large ribosomal subunit protein uL5B
+Macromolecule #14: Large ribosomal subunit protein eL13A
+Macromolecule #15: Large ribosomal subunit protein eL14A
+Macromolecule #16: Large ribosomal subunit protein eL15A
+Macromolecule #17: Large ribosomal subunit protein uL13A
+Macromolecule #18: Large ribosomal subunit protein uL22A
+Macromolecule #19: Large ribosomal subunit protein eL18A
+Macromolecule #20: Large ribosomal subunit protein eL19A
+Macromolecule #21: Large ribosomal subunit protein eL20A
+Macromolecule #22: Large ribosomal subunit protein eL21A
+Macromolecule #23: Large ribosomal subunit protein eL22A
+Macromolecule #24: Large ribosomal subunit protein uL14A
+Macromolecule #25: Large ribosomal subunit protein eL24A
+Macromolecule #26: Large ribosomal subunit protein uL23
+Macromolecule #27: Large ribosomal subunit protein uL24A
+Macromolecule #28: Large ribosomal subunit protein eL27A
+Macromolecule #29: Large ribosomal subunit protein uL15
+Macromolecule #30: Large ribosomal subunit protein eL29
+Macromolecule #31: Large ribosomal subunit protein eL30
+Macromolecule #32: Large ribosomal subunit protein eL31A
+Macromolecule #33: Large ribosomal subunit protein eL32
+Macromolecule #34: Large ribosomal subunit protein eL33A
+Macromolecule #35: Large ribosomal subunit protein eL34A
+Macromolecule #36: Large ribosomal subunit protein uL29A
+Macromolecule #37: Large ribosomal subunit protein eL36A
+Macromolecule #38: Large ribosomal subunit protein eL37A
+Macromolecule #39: Large ribosomal subunit protein eL38
+Macromolecule #40: Large ribosomal subunit protein eL39
+Macromolecule #41: Large ribosomal subunit protein eL40A
+Macromolecule #42: Large ribosomal subunit protein eL41A
+Macromolecule #43: Large ribosomal subunit protein eL42A
+Macromolecule #44: Large ribosomal subunit protein eL43A
+Macromolecule #46: Small ribosomal subunit protein uS3
+Macromolecule #47: Small ribosomal subunit protein uS7
+Macromolecule #48: Small ribosomal subunit protein eS10A
+Macromolecule #49: Small ribosomal subunit protein eS12
+Macromolecule #50: Small ribosomal subunit protein uS19
+Macromolecule #51: Small ribosomal subunit protein uS9A
+Macromolecule #52: Small ribosomal subunit protein eS17A
+Macromolecule #53: Small ribosomal subunit protein uS13A
+Macromolecule #54: Small ribosomal subunit protein eS19A
+Macromolecule #55: Small ribosomal subunit protein uS10
+Macromolecule #56: Small ribosomal subunit protein eS25A
+Macromolecule #57: Small ribosomal subunit protein eS28A
+Macromolecule #58: Small ribosomal subunit protein uS14A
+Macromolecule #59: Small ribosomal subunit protein eS31
+Macromolecule #60: Small ribosomal subunit protein RACK1
+Macromolecule #61: Small ribosomal subunit protein uS2A
+Macromolecule #62: Small ribosomal subunit protein eS1A
+Macromolecule #63: Small ribosomal subunit protein uS5
+Macromolecule #64: Small ribosomal subunit protein eS4A
+Macromolecule #65: Small ribosomal subunit protein eS6A
+Macromolecule #66: Small ribosomal subunit protein eS7A
+Macromolecule #67: Small ribosomal subunit protein eS8A
+Macromolecule #68: Small ribosomal subunit protein uS4A
+Macromolecule #69: Small ribosomal subunit protein uS17A
+Macromolecule #70: Small ribosomal subunit protein uS15
+Macromolecule #71: Small ribosomal subunit protein uS11B
+Macromolecule #72: Small ribosomal subunit protein eS21A
+Macromolecule #73: Small ribosomal subunit protein uS8A
+Macromolecule #74: Small ribosomal subunit protein uS12A
+Macromolecule #75: Small ribosomal subunit protein eS24A
+Macromolecule #76: Small ribosomal subunit protein eS26B
+Macromolecule #77: Small ribosomal subunit protein eS27A
+Macromolecule #78: Small ribosomal subunit protein eS30A
+Macromolecule #80: Eukaryotic peptide chain release factor subunit 1
+Macromolecule #82: Peptide 2k
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | JEOL CRYO ARM 300 |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm |